Two DNS Servers with different SOA

Hello,
I have a DNS Server in my main office (Lab environment) of an Active Directory domain.
I have set up another one in a branchoffice, and they communicated to each other just fine with a ISA Server VPN Site-to-site.
The link of that VPN broke and the branchoffice was off line for several days.
I managed to bring up again that VPN site to site, but now I see that the SOA within the DNS Sever in the branchoffice is
482, whereas the SOA in the DNS Server in the main office is
548.
I read somewhere that this SOA is precisely for this cases, and that Active Directory would determine which DNS is better and therefore, the branchoffice would take the new dns records.
Is this so? . I am waiting but don't see that the branchoffice takes that 548 SOA Number from the DNS in the main office.
Thanks in advance!
P.S : I manually changed some things in the DNS in the Branchoffice and I am hoping that the SOA will work that out.
Luis Olías Técnico/Admon Sistemas . Sevilla (España - Spain)

Hello again, I feel sort of annoying by posting so many things. 
I created a user in DC3 and it was replicated to DC1-New. If I do it the other way around, it does not work.
In other words, the replication process only works this way DC3 --> DC1-New. I have checked it is not a firewall issue, all are off, since I began this lab.
If I run repadmin /showrepl in DC1-New ,
it sees DC3 and all success messages regarding the replication.
If I run repadmin /showrepl in DC3,
it just sees nothing.
I also run dcdiag /test:knowsofroleholders in DC3 and
there is this message: The holder of the Schema master is a deleted DC (DC1) . The same of all the 5 FSMOs. 
I am trying to find a way to tell DC3 that the FSMOs holder is not DC1, but DC1-New. 
Thanks for your support.
Luis Olías Técnico/Admon Sistemas . Sevilla (España - Spain)

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